<?xml version="1.0" encoding="UTF-8"?>
<emd emdb_id="EMD-6362" version="3.0.1.9">
    <admin>
        <status_history_list>
            <status status_id="1">
                <code>REL</code>
            </status>
        </status_history_list>
        <current_status>
            <code>OBS</code>
            <processing_site>RCSB</processing_site>
        </current_status>
        <sites>
            <deposition>RCSB</deposition>
            <last_processing>RCSB</last_processing>
        </sites>
        <key_dates>
            <deposition>2015-06-23</deposition>
            <header_release>2015-07-01</header_release>
            <map_release>2016-06-29</map_release>
            <obsolete>2016-07-06</obsolete>
            <update>2016-07-06</update>
        </key_dates>
        <title>Negative-stain electron microscopy of the full-length Thermotoga maritima FtsH</title>
        <authors_list>
            <author>An JY</author>
            <author>Sharif H</author>
            <author>Barrera FN</author>
            <author>Karabadzhak AG</author>
            <author>Song JJ</author>
            <author>Jung TY</author>
            <author>Hebert H</author>
            <author>Kang GB</author>
            <author>Park KJ</author>
            <author>Lee JG</author>
            <author>Sakkiah S</author>
            <author>Lee KW</author>
            <author>Jeon H</author>
            <author>Lee S</author>
            <author>Engelman DM</author>
            <author>Wang J</author>
            <author>Eom SH</author>
        </authors_list>
        <keywords>ATP-dependent proteolysis, Non-native membrane proteins, Open closed gating, TM modeling, Crystallography and electron microscopy</keywords>
    </admin>
    <crossreferences>
        <citation_list>
            <primary_citation>
                <journal_citation published="false">
                    <author order="1">An JY</author>
                    <author order="2">Sharif H</author>
                    <author order="3">Barrera FN</author>
                    <author order="4">Karabadzhak AG</author>
                    <author order="5">Song JJ</author>
                    <author order="6">Jung TY</author>
                    <author order="7">Hebert H</author>
                    <author order="8">Kang GB</author>
                    <author order="9">Park KJ</author>
                    <author order="10">Lee JG</author>
                    <author order="11">Sakkiah S</author>
                    <author order="12">Lee KW</author>
                    <author order="13">Jeon H</author>
                    <author order="14">Lee S</author>
                    <author order="15">Engelman DM</author>
                    <author order="16">Wang J</author>
                    <author order="17">Eom SH</author>
                    <title>Crystallographic and EM structures of FtsH and its domains suggest a reverse translocon mechanism for membrane protein extraction</title>
                    <journal>To Be Published</journal>
                </journal_citation>
            </primary_citation>
        </citation_list>
    </crossreferences>
    <sample>
        <name>Full length FtsH from Thermotoga maritima</name>
        <supramolecule_list>
            <sample_supramolecule supramolecule_id="1000">
                <name>Full length FtsH from Thermotoga maritima</name>
                <oligomeric_state>homohexamer</oligomeric_state>
                <number_unique_components>1</number_unique_components>
                <molecular_weight>
                    <experimental units="MDa">0.65</experimental>
                    <theoretical units="MDa">0.65</theoretical>
                    <method>size exclusion chromatography</method>
                </molecular_weight>
            </sample_supramolecule>
        </supramolecule_list>
        <macromolecule_list>
            <protein_or_peptide macromolecule_id="1">
                <name>FtsH protease</name>
                <natural_source database="NCBI">
                    <organism ncbi="2336">Thermotoga maritima</organism>
                </natural_source>
                <molecular_weight>
                    <experimental units="MDa">0.65</experimental>
                    <theoretical units="MDa">0.65</theoretical>
                </molecular_weight>
                <oligomeric_state>homohexamer</oligomeric_state>
                <recombinant_exp_flag>true</recombinant_exp_flag>
                <recombinant_expression database="NCBI">
                    <recombinant_organism ncbi="562">Escherichia coli</recombinant_organism>
                    <recombinant_plasmid>pET28a</recombinant_plasmid>
                </recombinant_expression>
                <sequence>
                    <external_references type="UNIPROTKB">Q9WZ49</external_references>
                </sequence>
            </protein_or_peptide>
        </macromolecule_list>
    </sample>
    <structure_determination_list>
        <structure_determination structure_determination_id="1">
            <method>singleParticle</method>
            <aggregation_state>particle</aggregation_state>
            <specimen_preparation_list>
                <single_particle_preparation preparation_id="1">
                    <buffer>
                        <ph>7.5</ph>
                        <details>50 mM HEPES, 100 mM NaCl, 0.1% glutaldehyde, 10% sucrose</details>
                    </buffer>
                    <staining>
                        <type>NEGATIVE</type>
                        <details>Grids with absorbed protein were pre-washed 3 times with DW and stained with 2% uranyl acetate for one minute.</details>
                    </staining>
                    <grid>
                        <details>400 mesh copper grid with thin carbon</details>
                    </grid>
                    <vitrification>
                        <cryogen_name>NONE</cryogen_name>
                        <instrument>OTHER</instrument>
                    </vitrification>
                </single_particle_preparation>
            </specimen_preparation_list>
            <microscopy_list>
                <single_particle_microscopy microscopy_id="1">
                    <microscope>JEOL 2100F</microscope>
                    <illumination_mode>FLOOD BEAM</illumination_mode>
                    <imaging_mode>BRIGHT FIELD</imaging_mode>
                    <electron_source>FIELD EMISSION GUN</electron_source>
                    <acceleration_voltage units="kV">200</acceleration_voltage>
                    <nominal_cs units="mm">2.0</nominal_cs>
                    <nominal_defocus_min units="µm">0.6</nominal_defocus_min>
                    <nominal_defocus_max units="µm">1.7</nominal_defocus_max>
                    <nominal_magnification>50000.0</nominal_magnification>
                    <calibrated_magnification>72165.0</calibrated_magnification>
                    <specimen_holder_model>JEOL</specimen_holder_model>
                    <alignment_procedure>
                        <legacy>
                            <astigmatism>Objective lens astigmatism was corrected at 50000 times magnification.</astigmatism>
                        </legacy>
                    </alignment_procedure>
                    <date>2014-12-09</date>
                    <image_recording_list>
                        <image_recording>
                            <film_or_detector_model category="CCD">TVIPS TEMCAM-F415 (4k x 4k)</film_or_detector_model>
                            <number_real_images>50</number_real_images>
                        </image_recording>
                    </image_recording_list>
                </single_particle_microscopy>
            </microscopy_list>
            <singleparticle_processing image_processing_id="1">
                <details>All data processing and refinement was done using the EMAN2 program.</details>
                <ctf_correction>
                    <details>Each particle</details>
                </ctf_correction>
                <final_reconstruction>
                    <resolution units="Å" res_type="BY AUTHOR">21.0</resolution>
                    <resolution_method>OTHER</resolution_method>
                    <software_list>
                        <software>
                            <name>EMAN2</name>
                        </software>
                    </software_list>
                    <number_images_used>2558</number_images_used>
                </final_reconstruction>
                <final_two_d_classification>
                    <number_classes>20</number_classes>
                </final_two_d_classification>
            </singleparticle_processing>
        </structure_determination>
    </structure_determination_list>
    <map format="CCP4" size_kbytes="13185">
        <file>emd_6362.map.gz</file>
        <symmetry>
            <space_group>1</space_group>
        </symmetry>
        <data_type>IMAGE STORED AS FLOATING POINT NUMBER (4 BYTES)</data_type>
        <dimensions>
            <col>150</col>
            <row>150</row>
            <sec>150</sec>
        </dimensions>
        <origin>
            <col>-75</col>
            <row>-75</row>
            <sec>-75</sec>
        </origin>
        <spacing>
            <x>150</x>
            <y>150</y>
            <z>150</z>
        </spacing>
        <cell>
            <a units="Å">312.0</a>
            <b units="Å">312.0</b>
            <c units="Å">312.0</c>
            <alpha units="deg">90.0</alpha>
            <beta units="deg">90.0</beta>
            <gamma units="deg">90.0</gamma>
        </cell>
        <axis_order>
            <fast>X</fast>
            <medium>Y</medium>
            <slow>Z</slow>
        </axis_order>
        <statistics>
            <minimum>-2.77754521</minimum>
            <maximum>7.27051163</maximum>
            <average>0.02960115</average>
            <std>0.34238788</std>
        </statistics>
        <pixel_spacing>
            <x units="Å">2.08</x>
            <y units="Å">2.08</y>
            <z units="Å">2.08</z>
        </pixel_spacing>
        <contour_list>
            <contour primary="true">
                <level>0.9</level>
                <source>AUTHOR</source>
            </contour>
        </contour_list>
        <annotation_details>Reconstruction of full length FtsH from Thermotoga maritima</annotation_details>
        <details>::::EMDATABANK.org::::EMD-6362::::</details>
    </map>
    <interpretation>
        <figure_list>
            <figure>
                <file>emd_6362.png</file>
            </figure>
        </figure_list>
    </interpretation>
    <validation>
        <fsc_curve>
            <file>emd_6362_fsc.xml</file>
        </fsc_curve>
    </validation>
</emd>
